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1N8F
Asym. Unit
Info
Asym.Unit (245 KB)
Biol.Unit 1 (124 KB)
Biol.Unit 2 (120 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF E24Q MUTANT OF PHENYLALANINE-REGULATED 3-DEOXY-D-ARABINO-HEPTULOSONATE-7-PHOSPHATE SYNTHASE (DAHP SYNTHASE) FROM ESCHERICHIA COLI IN COMPLEX WITH MN2+ AND PEP
Authors
:
I. A. Shumilin, R. Bauerle, R. H. Kretsinger
Date
:
20 Nov 02 (Deposition) - 22 Apr 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
(Beta/Alpha)8 Barrel, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. A. Shumilin, R. Bauerle, R. H. Kretsinger
The High-Resolution Structure Of 3-Deoxy-D-Arabino-Heptulosonate-7-Phosphate Synthase Reveals A Twist In The Plane Of Bound Phosphoenolpyruvate
Biochemistry V. 42 3766 2003
(for further references see the
PDB file header
)
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
2a: PHOSPHOENOLPYRUVATE (PEPa)
2b: PHOSPHOENOLPYRUVATE (PEPb)
2c: PHOSPHOENOLPYRUVATE (PEPc)
2d: PHOSPHOENOLPYRUVATE (PEPd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
4
Ligand/Ion
MANGANESE (II) ION
2
PEP
4
Ligand/Ion
PHOSPHOENOLPYRUVATE
3
SO4
8
Ligand/Ion
SULFATE ION
[
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Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:61 , HIS A:268 , GLU A:302 , ASP A:326 , PEP A:1396 , HOH A:5416
BINDING SITE FOR RESIDUE MN A 351
02
AC2
SOFTWARE
CYS B:61 , HIS B:268 , GLU B:302 , ASP B:326 , PEP B:1397 , HOH B:2376
BINDING SITE FOR RESIDUE MN B 351
03
AC3
SOFTWARE
CYS C:61 , HIS C:268 , GLU C:302 , ASP C:326 , PEP C:1398 , HOH C:3451
BINDING SITE FOR RESIDUE MN C 351
04
AC4
SOFTWARE
CYS D:61 , HIS D:268 , GLU D:302 , ASP D:326 , PEP D:1399 , HOH D:4414
BINDING SITE FOR RESIDUE MN D 351
05
AC5
SOFTWARE
ARG A:99 , THR A:100 , HOH A:5446
BINDING SITE FOR RESIDUE SO4 A 5353
06
AC6
SOFTWARE
ARG B:99 , THR B:100 , HOH B:2404 , HOH B:2433 , HOH B:2557 , HOH B:2672
BINDING SITE FOR RESIDUE SO4 B 2353
07
AC7
SOFTWARE
ARG C:99 , THR C:100 , HOH C:3480 , HOH C:3509 , HOH C:3552
BINDING SITE FOR RESIDUE SO4 C 3353
08
AC8
SOFTWARE
ARG D:99 , THR D:100 , HOH D:4444 , HOH D:4474 , HOH D:4547 , HOH D:4628
BINDING SITE FOR RESIDUE SO4 D 4353
09
AC9
SOFTWARE
THR A:192 , ILE A:193 , LYS A:194 , HOH A:5370 , HOH A:5553 , HOH A:5587 , HOH A:5654
BINDING SITE FOR RESIDUE SO4 A 5356
10
BC1
SOFTWARE
THR B:192 , ILE B:193 , LYS B:194 , HOH B:2467 , HOH B:2591 , HOH B:2641
BINDING SITE FOR RESIDUE SO4 B 2356
11
BC2
SOFTWARE
THR C:192 , ILE C:193 , LYS C:194 , HOH C:3405 , HOH C:3544 , HOH C:3575
BINDING SITE FOR RESIDUE SO4 C 3356
12
BC3
SOFTWARE
THR D:192 , ILE D:193 , LYS D:194
BINDING SITE FOR RESIDUE SO4 D 4356
13
BC4
SOFTWARE
ARG A:92 , LYS A:97 , PRO A:98 , GLU A:143 , GLY A:163 , ALA A:164 , ARG A:165 , LYS A:186 , ARG A:234 , HIS A:268 , MN A:351 , HOH A:5406 , HOH A:5413 , HOH A:5416 , HOH A:5432 , HOH A:5461
BINDING SITE FOR RESIDUE PEP A 1396
14
BC5
SOFTWARE
ARG B:92 , LYS B:97 , GLU B:143 , GLY B:163 , ALA B:164 , ARG B:165 , LYS B:186 , ARG B:234 , HIS B:268 , MN B:351 , HOH B:2366 , HOH B:2373 , HOH B:2376 , HOH B:2391 , HOH B:2419
BINDING SITE FOR RESIDUE PEP B 1397
15
BC6
SOFTWARE
ARG C:92 , LYS C:97 , GLU C:143 , GLY C:163 , ALA C:164 , ARG C:165 , LYS C:186 , ARG C:234 , HIS C:268 , GLU C:302 , MN C:351 , HOH C:3441 , HOH C:3448 , HOH C:3451 , HOH C:3467 , HOH C:3495
BINDING SITE FOR RESIDUE PEP C 1398
16
BC7
SOFTWARE
ARG D:92 , LYS D:97 , GLU D:143 , GLY D:163 , ALA D:164 , ARG D:165 , LYS D:186 , ARG D:234 , HIS D:268 , MN D:351 , HOH D:4404 , HOH D:4411 , HOH D:4414 , HOH D:4431 , HOH D:4460
BINDING SITE FOR RESIDUE PEP D 1399
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1n8fa_ (A:)
1b: SCOP_d1n8fb_ (B:)
1c: SCOP_d1n8fc_ (C:)
1d: SCOP_d1n8fd_ (D:)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
Class I DAHP synthetase
(87)
Protein domain
:
3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG)
(16)
Escherichia coli, phenylalanine-regulated isozyme [TaxId: 562]
(4)
1a
d1n8fa_
A:
1b
d1n8fb_
B:
1c
d1n8fc_
C:
1d
d1n8fd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1n8fA00 (A:8-350)
1b: CATH_1n8fB00 (B:8-350)
1c: CATH_1n8fC00 (C:8-350)
1d: CATH_1n8fD00 (D:8-350)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Escherichia coli. Organism_taxid: 562.
(43)
1a
1n8fA00
A:8-350
1b
1n8fB00
B:8-350
1c
1n8fC00
C:8-350
1d
1n8fD00
D:8-350
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_DAHP_synth_1_1n8fD01 (D:25-339)
1b: PFAM_DAHP_synth_1_1n8fD02 (D:25-339)
1c: PFAM_DAHP_synth_1_1n8fD03 (D:25-339)
1d: PFAM_DAHP_synth_1_1n8fD04 (D:25-339)
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Clan
:
TIM_barrel
(694)
Family
:
DAHP_synth_1
(46)
Escherichia coli (strain K12)
(7)
1a
DAHP_synth_1-1n8fD01
D:25-339
1b
DAHP_synth_1-1n8fD02
D:25-339
1c
DAHP_synth_1-1n8fD03
D:25-339
1d
DAHP_synth_1-1n8fD04
D:25-339
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Asym.Unit (245 KB)
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